Page 165 - handbook 20152016

Faculty of Science Handbook, Session 2015/2016

2. Sunil Mathur (2010). Statistical Bioinformatics with R. the student’s performance throughout the duration of the
Akademic Press. training.
3. Frederick R Adler (2012). Modeling the Dynamics of
Life: Calculus and Probability for life Scientists. Brooks Assessment Methods: 100%
Continuous Assessment:
Cole.
Medium of Instruction:
English
SIB 2011 INTRODUCTION TO DATABASE SYSTEMS
Soft Skills:
The syllabus of this course includes background of CS3, CT3, TS1, EM2
database systems, the relational model and languages,
Relational algebra and relational calculus, Database
analysis and design, methodology and some selected SIB 3003 ANALYSIS OF MOLECULAR SEQUENCE
database issues.
This course emphasizes the basic understanding and
Assessment Methods: knowledge required to analyse different types of molecular
Continuous Assessment: 60% sequences. In practice, students will be introduced to
Final Examination: 40% databases, methods of searching and matching,
exploration of molecular information using predictive
Medium of Instruction: methods, and molecular phylogenetics for both nucleic
English acids and protein sequences.

Soft Skills: Assessment Methods:
CS3, LL2, EM2 Continuous Assessment: 40%
Final Examination: 60%
Main References:
1. Connolly, T. M. & Begg, C.E. (2014). Database Medium of Instruction:
Systems: A Practical Approach to Design, English
Implementation, and Management. 6th ed. Pearson
Education. Soft Skills:
2. Carlos Coronel & Steven Morris (2014). Database CT3, TS2, LS2
Systems: Design, Implementation, & Management.
3. Nenad Jukic & Susan Vrbsky (2013). Database Main References:
Systems: Introduction to Databases and Data 1. Tore S. (2012). Genomics and Bioinformatics: An
Warehouses. Introduction to Programming Tools for Life Scientists.
Cambridge University Press.
2. Ziheng Yang (2014). Molecular Evolution: A Statistical
SIB 3001 BIOINFORMATICS PROJECT Approach. Oxford University Press.
3. Micheal Agostino (2012). Practical Bioinformatics.
The course is best taken in two consecutive semesters. Garland Science.
The 3rd Semester is not included as the duration is short
(8 weeks only). Students carry out the research projects
(and complete the thesis) individually under the SIB 3004 PROGRAMMING IN BIOINFORMATICS
supervision of at least one lecturer from the enroled
program (unless in special cases that was consented by This course aims to provide specific knowledge required
the Head of ISB). The lecturer is considered as the main for bioinformatics students to learn advanced aspects in
supervisor. The supervisor must ensure that the project bioinformatics programming. It covers the techniques used
can be completed within the 2 semesters. Thesis of the for bioinformatics programming; and instruction on the
project should be submitted to the examiner. It should be techniques and the use of tools for accessing, searching
presented to the appointed Co-ordinator of the Course, by and retrieving information from biological databases and
the 14th week of the 2nd Semester. Texts of the thesis is the submission of new entries. Besides that, it also
suggested to be between 10,000-20,000 words (excluding introduces the scripting languages commonly used in
tables, bibliography, appendices, etc). Bioinformatics such as Perl, Python and Java. The
libraries and toolkits relating to the scripting languages will
Assessment Methods: be also introduced such BioPerl, Biopython and BioJava.
Thesis: 50% Various problems related to Bioinformatics are considered
Presentation: 50% to be solved using one of the scripting programming
languages.
Medium of Instruction:
English Assessment Methods:
Continuous Assessment: 60%
Soft Skills: Final Examination: 40%
CS3, CT3, LL2, EM2
Medium of Instruction:
English
SIB 3002 BIOINFORMATICS INDUSTRIAL TRAINING Soft Skills:
CS4, CT3, TS2
Students will be placed at government hospitals, other
relevant government or private agencies of their choice, Main References:
which have agreed to host them. Students will be exposed 1. Keith Bradnam and Ian Korf (2012). UNIX and Perl to
to everyday working activities as instructed by their the Rescue: A Field Guide for the Life Sciences.
supervisors at the place of work. At the end of the training, Cambridge University Press
the students have to submit a report for the training 2. Brian D foy, Randal L. Schwartz and Tom Phoenix
experience; the employer submits a separate report about (2011). Learning Perl. Sixth Edition. O'Reilly Media

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